Package: exomeCopy

Version: 1.30.0

Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/exomeCopy_1.30.0.tar.gz && rm -rf exomeCopy.buildbin-libdir && mkdir exomeCopy.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=exomeCopy.buildbin-libdir exomeCopy_1.30.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL exomeCopy_1.30.0.zip && rm exomeCopy_1.30.0.tar.gz exomeCopy_1.30.0.zip

StartedAt: 2019-10-15 20:02:53 -0400 (Tue, 15 Oct 2019)

EndedAt: 2019-10-15 20:03:41 -0400 (Tue, 15 Oct 2019)

EllapsedTime: 48.0 seconds

RetCode: 0

Status:  OK

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### Running command:
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###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/exomeCopy_1.30.0.tar.gz && rm -rf exomeCopy.buildbin-libdir && mkdir exomeCopy.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=exomeCopy.buildbin-libdir exomeCopy_1.30.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL exomeCopy_1.30.0.zip && rm exomeCopy_1.30.0.tar.gz exomeCopy_1.30.0.zip
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install for i386

* installing *source* package 'exomeCopy' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c exomeCopy.c -o exomeCopy.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o exomeCopy.dll tmp.def exomeCopy.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/exomeCopy.buildbin-libdir/00LOCK-exomeCopy/00new/exomeCopy/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'exomeCopy'
    finding HTML links ... done
    ExomeCopy-class                         html  
    compileCopyCountSegments                html  
    copyCountSegments                       html  
    countBamInGRanges                       html  
    finding level-2 HTML links ... done

    exomeCopy-package                       html  
    exomeCopy                               html  
    exomecounts                             html  
    generateBackground                      html  
    getGCcontent                            html  
    negLogLike                              html  
    plot.exomeCopyObject                    html  
    plotCompiledCNV                         html  
    subdivideGRanges                        html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'exomeCopy' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c exomeCopy.c -o exomeCopy.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o exomeCopy.dll tmp.def exomeCopy.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/exomeCopy.buildbin-libdir/exomeCopy/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'exomeCopy' as exomeCopy_1.30.0.zip
* DONE (exomeCopy)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'exomeCopy' successfully unpacked and MD5 sums checked